chore: track claude skills, tools, templates, reference code and research-wiki

- Add all claude skills (brainstorming, commit, debugging, TDD, etc.)
- Add claude hooks (pre-commit-guard, post-edit-quality)
- Add research templates (experiment plan, research brief, etc.)
- Add claude tools (arxiv/semantic_scholar/openalex fetch, wiki, exa)
- Add TRM4 reference implementation as algorithm fidelity baseline
- Add research-wiki content (plans, index, graph, query_pack)
- Update .gitignore to exclude .graphify_version runtime state
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---
name: brainstorming
description: "You MUST use this before any creative work - creating features, building components, adding functionality, or modifying behavior. Explores user intent, requirements and design before implementation."
---
# Brainstorming Ideas Into Designs
Help turn ideas into fully formed designs and specs through natural collaborative dialogue.
Start by understanding the current project context, then ask questions one at a time to refine the idea. Once you understand what you're building, present the design and get user approval.
<HARD-GATE>
Do NOT invoke any implementation skill, write any code, scaffold any project, or take any implementation action until you have presented a design and the user has approved it. This applies to EVERY project regardless of perceived simplicity.
</HARD-GATE>
## Anti-Pattern: "This Is Too Simple To Need A Design"
Every project goes through this process. A todo list, a single-function utility, a config change — all of them. "Simple" projects are where unexamined assumptions cause the most wasted work. The design can be short (a few sentences for truly simple projects), but you MUST present it and get approval.
## Checklist
You MUST create a task for each of these items and complete them in order:
1. **Explore project context** — check files, docs, recent commits
2. **Offer visual companion** (if topic will involve visual questions) — this is its own message, not combined with a clarifying question. See the Visual Companion section below.
3. **Ask clarifying questions** — one at a time, understand purpose/constraints/success criteria
4. **Propose 2-3 approaches** — with trade-offs and your recommendation
5. **Present design** — in sections scaled to their complexity, get user approval after each section
6. **Write design doc** — save to `research-wiki/designs/YYYY-MM-DD-<topic>-design.md` and commit
7. **Spec self-review** — quick inline check for placeholders, contradictions, ambiguity, scope (see below)
7.5. **Codex design review** — independent Codex review via `/codex:rescue --fresh --wait`, verify findings, apply accepted fixes inline (see below)
8. **User reviews written spec** — ask user to review the spec file before proceeding
9. **Transition to implementation** — invoke writing-plans skill to create implementation plan
## Process Flow
```dot
digraph brainstorming {
"Explore project context" [shape=box];
"Visual questions ahead?" [shape=diamond];
"Offer Visual Companion\n(own message, no other content)" [shape=box];
"Ask clarifying questions" [shape=box];
"Propose 2-3 approaches" [shape=box];
"Present design sections" [shape=box];
"User approves design?" [shape=diamond];
"Write design doc" [shape=box];
"Spec self-review\n(fix inline)" [shape=box];
"Codex design review\n(/codex:rescue --fresh --wait, fix inline)" [shape=box];
"User reviews spec?" [shape=diamond];
"Invoke writing-plans skill" [shape=doublecircle];
"Explore project context" -> "Visual questions ahead?";
"Visual questions ahead?" -> "Offer Visual Companion\n(own message, no other content)" [label="yes"];
"Visual questions ahead?" -> "Ask clarifying questions" [label="no"];
"Offer Visual Companion\n(own message, no other content)" -> "Ask clarifying questions";
"Ask clarifying questions" -> "Propose 2-3 approaches";
"Propose 2-3 approaches" -> "Present design sections";
"Present design sections" -> "User approves design?";
"User approves design?" -> "Present design sections" [label="no, revise"];
"User approves design?" -> "Write design doc" [label="yes"];
"Write design doc" -> "Spec self-review\n(fix inline)";
"Spec self-review\n(fix inline)" -> "Codex design review\n(/codex:rescue --fresh --wait, fix inline)";
"Codex design review\n(/codex:rescue --fresh --wait, fix inline)" -> "User reviews spec?";
"User reviews spec?" -> "Write design doc" [label="changes requested"];
"User reviews spec?" -> "Invoke writing-plans skill" [label="approved"];
}
```
**The terminal state is invoking writing-plans.** Do NOT invoke frontend-design, mcp-builder, or any other implementation skill. The ONLY skill you invoke after brainstorming is writing-plans.
## The Process
**Understanding the idea:**
- Check out the current project state first (files, docs, recent commits)
- **代码检索(graphify)**:在查阅现有代码结构前,先跑 `/graphify . --update` 刷新知识图谱(增量合并:改代码免费、改文档才 LLM),再优先用 `/graphify query "<问题>"` / `graphify path` / `graphify explain` 做结构化检索,而非盲读文件。若 `graphify-out/graph.json` 不存在,提示人类先手动 `/graphify .`;未建图前不阻断,降级为常规文件阅读。
- Before asking detailed questions, assess scope: if the request describes multiple independent subsystems (e.g., "build a platform with chat, file storage, billing, and analytics"), flag this immediately. Don't spend questions refining details of a project that needs to be decomposed first.
- If the project is too large for a single spec, help the user decompose into sub-projects: what are the independent pieces, how do they relate, what order should they be built? Then brainstorm the first sub-project through the normal design flow. Each sub-project gets its own spec → plan → implementation cycle.
- For appropriately-scoped projects, ask questions one at a time to refine the idea
- Prefer multiple choice questions when possible, but open-ended is fine too
- Only one question per message - if a topic needs more exploration, break it into multiple questions
- Focus on understanding: purpose, constraints, success criteria
**Exploring approaches:**
- Propose 2-3 different approaches with trade-offs
- Present options conversationally with your recommendation and reasoning
- Lead with your recommended option and explain why
**Presenting the design:**
- Once you believe you understand what you're building, present the design
- Scale each section to its complexity: a few sentences if straightforward, up to 200-300 words if nuanced
- Ask after each section whether it looks right so far
- Cover: architecture, components, data flow, error handling, testing
- Be ready to go back and clarify if something doesn't make sense
**Design for isolation and clarity:**
- Break the system into smaller units that each have one clear purpose, communicate through well-defined interfaces, and can be understood and tested independently
- For each unit, you should be able to answer: what does it do, how do you use it, and what does it depend on?
- Can someone understand what a unit does without reading its internals? Can you change the internals without breaking consumers? If not, the boundaries need work.
- Smaller, well-bounded units are also easier for you to work with - you reason better about code you can hold in context at once, and your edits are more reliable when files are focused. When a file grows large, that's often a signal that it's doing too much.
**Working in existing codebases:**
- Explore the current structure before proposing changes. Follow existing patterns.
- Where existing code has problems that affect the work (e.g., a file that's grown too large, unclear boundaries, tangled responsibilities), include targeted improvements as part of the design - the way a good developer improves code they're working in.
- Don't propose unrelated refactoring. Stay focused on what serves the current goal.
## After the Design
**Documentation:**
- Write the validated design (spec) to `research-wiki/designs/YYYY-MM-DD-<topic>-design.md`
- (User preferences for spec location override this default)
- Use elements-of-style:writing-clearly-and-concisely skill if available
- Commit the design document to git
**Spec Self-Review:**
After writing the spec document, look at it with fresh eyes:
1. **Placeholder scan:** Any "TBD", "TODO", incomplete sections, or vague requirements? Fix them.
2. **Internal consistency:** Do any sections contradict each other? Does the architecture match the feature descriptions?
3. **Scope check:** Is this focused enough for a single implementation plan, or does it need decomposition?
4. **Ambiguity check:** Could any requirement be interpreted two different ways? If so, pick one and make it explicit.
Fix any issues inline. No need to re-review — just fix and move on.
**Codex Design Review:**
After your self-review passes, get an independent second opinion from Codex before the human gate:
> 用 `/codex:rescue --fresh --wait` 把"用户需求溯源 + 设计全文"交 Codex 独立审查(只读),要求逐条核对需求覆盖、内部一致性、与 CLAUDE.md/既有设计的冲突,按 Critical/Important/Minor 返回必改项。
Verify each finding against the codebase (do not blindly accept). Apply the accepted fixes inline, then proceed to the User Review Gate. The human gate is preserved.
**User Review Gate:**
After the spec review loop passes, ask the user to review the written spec before proceeding:
> "Spec written and committed to `<path>`. Please review it and let me know if you want to make any changes before we start writing out the implementation plan."
Wait for the user's response. If they request changes, make them and re-run the spec review loop. Only proceed once the user approves.
**Implementation:**
- Invoke the writing-plans skill to create a detailed implementation plan
- Do NOT invoke any other skill. writing-plans is the next step.
## Key Principles
- **One question at a time** - Don't overwhelm with multiple questions
- **Multiple choice preferred** - Easier to answer than open-ended when possible
- **YAGNI ruthlessly** - Remove unnecessary features from all designs
- **Explore alternatives** - Always propose 2-3 approaches before settling
- **Incremental validation** - Present design, get approval before moving on
- **Be flexible** - Go back and clarify when something doesn't make sense
## Visual Companion
A browser-based companion for showing mockups, diagrams, and visual options during brainstorming. Available as a tool — not a mode. Accepting the companion means it's available for questions that benefit from visual treatment; it does NOT mean every question goes through the browser.
**Offering the companion:** When you anticipate that upcoming questions will involve visual content (mockups, layouts, diagrams), offer it once for consent:
> "Some of what we're working on might be easier to explain if I can show it to you in a web browser. I can put together mockups, diagrams, comparisons, and other visuals as we go. This feature is still new and can be token-intensive. Want to try it? (Requires opening a local URL)"
**This offer MUST be its own message.** Do not combine it with clarifying questions, context summaries, or any other content. The message should contain ONLY the offer above and nothing else. Wait for the user's response before continuing. If they decline, proceed with text-only brainstorming.
**Per-question decision:** Even after the user accepts, decide FOR EACH QUESTION whether to use the browser or the terminal. The test: **would the user understand this better by seeing it than reading it?**
- **Use the browser** for content that IS visual — mockups, wireframes, layout comparisons, architecture diagrams, side-by-side visual designs
- **Use the terminal** for content that is text — requirements questions, conceptual choices, tradeoff lists, A/B/C/D text options, scope decisions
A question about a UI topic is not automatically a visual question. "What does personality mean in this context?" is a conceptual question — use the terminal. "Which wizard layout works better?" is a visual question — use the browser.
If they agree to the companion, read the detailed guide before proceeding:
`skills/brainstorming/visual-companion.md`
## Wiki Integration
**Precondition**: `research-wiki/` directory exists (skip this section entirely if it does not).
**Trigger**: When a design is approved and the design document is being written.
**Output path**: Design docs are saved to `research-wiki/designs/` instead of `docs/superpowers/specs/`.
**Steps**:
1. Run `.claude/tools/research_wiki.py add_entity research-wiki/ --type design --id <slug> --title "<design title>"` to create the design entity
2. Append the chosen approach, key decision rationale, rejected alternatives, and why they were rejected to the generated page
3. If the design is related to an idea, run `.claude/tools/research_wiki.py add_edge research-wiki/ --from "design:<id>" --to "idea:<id>" --type refines --evidence "..."`
4. Run `.claude/tools/research_wiki.py rebuild_index research-wiki/`